I have normalized count data from RNA-seq protocol. The normalization steps include DESeq2 with design ~1. Unfortunately, I do not have the raw counts. Can I use those normalized counts for DESeq2 with different design? Thank you.
Nope, please read the manual of DESeq2, it clearly tells to use raw counts. What "normalized counts" do you have exactly? limma-trend might be an option.
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